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(-) Description

Title :  CRYSTAL STRUCTURE OF EGFR 696-1022 T790M/V948R, CRYSTAL FORM II
 
Authors :  X. E. Yan, C. H. Yun
Date :  13 May 15  (Deposition) - 15 Jun 16  (Release) - 15 Jun 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.97
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,D  (1x)
Biol. Unit 2:  B,C  (1x)
Keywords :  Egfr, T790M, V948R, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Wu, A. Wang, W. Zhang, B. Wang, B. Wang, X. E. Yan, C. Chen, C. Hu, Z. Ye, Z. Zhao, L. Wang, X. Li, K. Yu, J. Liu, J. Wu, J. Wang, C. Wang, E. L. Weisberg, J. Liu, N. S. Gray, L. Chen, C. H. Yun, Q. Liu
Ibrutinib Selectively And Irreversibly Targets Egfr-Mutant Non-Small Cell Lung Cancer Cells
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - EPIDERMAL GROWTH FACTOR RECEPTOR
    Chains: A, B, C, D
    EC Number: 2.7.10.1
    Engineered: YES
    Expression System: SPODOPTERA FRUGIPERDA
    Expression System Cell Line: SF9
    Expression System Common: FALL ARMYWORM
    Expression System Taxid: 7108
    Expression System Vector Type: BACULOVIRUS
    Fragment: UNP RESIDUES 695-1022
    Gene: EGFR, ERBB, ERBB1, HER1
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: PROTO-ONCOGENE C-ERBB-1,RECEPTOR TYROSINE-PROTEIN KINASE ERBB-1

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): A  D
Biological Unit 2 (1x):  BC 

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 9)

Asymmetric Unit (3, 9)
No.NameCountTypeFull Name
1ANP4Ligand/IonPHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
2EDO1Ligand/Ion1,2-ETHANEDIOL
3MG4Ligand/IonMAGNESIUM ION
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1ANP2Ligand/IonPHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
2EDO-1Ligand/Ion1,2-ETHANEDIOL
3MG-1Ligand/IonMAGNESIUM ION
Biological Unit 2 (2, 3)
No.NameCountTypeFull Name
1ANP2Ligand/IonPHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
2EDO1Ligand/Ion1,2-ETHANEDIOL
3MG-1Ligand/IonMAGNESIUM ION

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELEU A:718 , GLY A:719 , SER A:720 , GLY A:721 , ALA A:722 , GLY A:724 , VAL A:726 , ALA A:743 , LYS A:745 , MET A:790 , GLN A:791 , MET A:793 , CYS A:797 , ASP A:837 , ARG A:841 , ASN A:842 , LEU A:844 , ASP A:855 , MG A:1102 , HOH A:1218 , HOH A:1258 , HOH A:1270 , HOH A:1275 , HOH A:1282 , HOH A:1287 , HOH A:1291binding site for residue ANP A 1101
2AC2SOFTWAREASN A:842 , ASP A:855 , ANP A:1101 , HOH A:1282binding site for residue MG A 1102
3AC3SOFTWARELEU B:718 , GLY B:719 , GLY B:721 , ALA B:722 , GLY B:724 , VAL B:726 , ALA B:743 , LYS B:745 , MET B:790 , GLN B:791 , MET B:793 , CYS B:797 , ASP B:837 , ARG B:841 , ASN B:842 , LEU B:844 , ASP B:855 , MG B:2002 , HOH B:2132 , HOH B:2193 , HOH B:2205 , HOH B:2215 , HOH B:2219 , HOH B:2224 , HOH B:2249 , HOH B:2266binding site for residue ANP B 2001
4AC4SOFTWAREASN B:842 , ASP B:855 , ANP B:2001 , HOH B:2132binding site for residue MG B 2002
5AC5SOFTWARELEU C:718 , GLY C:719 , SER C:720 , GLY C:721 , ALA C:722 , GLY C:724 , VAL C:726 , ALA C:743 , LYS C:745 , MET C:790 , GLN C:791 , MET C:793 , CYS C:797 , ASP C:837 , ARG C:841 , ASN C:842 , LEU C:844 , ASP C:855 , MG C:3002 , HOH C:3142 , HOH C:3157 , HOH C:3176 , HOH C:3180 , HOH C:3193 , HOH C:3198binding site for residue ANP C 3001
6AC6SOFTWAREASN C:842 , ASP C:855 , ANP C:3001 , HOH C:3180binding site for residue MG C 3002
7AC7SOFTWAREHOH B:2206 , ASN C:808 , TYR C:813binding site for residue EDO C 3003
8AC8SOFTWAREGLY D:719 , SER D:720 , GLY D:721 , ALA D:722 , GLY D:724 , VAL D:726 , ALA D:743 , LYS D:745 , MET D:790 , GLN D:791 , MET D:793 , CYS D:797 , ASP D:837 , ARG D:841 , ASN D:842 , LEU D:844 , ASP D:855 , MG D:4002 , HOH D:4157 , HOH D:4161 , HOH D:4171 , HOH D:4174binding site for residue ANP D 4001
9AC9SOFTWAREASN D:842 , ASP D:855 , ANP D:4001 , HOH D:4132binding site for residue MG D 4002

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4ZSE)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Leu B:989 -Pro B:990

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4ZSE)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4ZSE)

(-) Exons   (0, 0)

(no "Exon" information available for 4ZSE)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:297
                                                                                                                                                                                                                                                                                                                                          
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhee.hhh.eeeeeeeee...eeeeeeee........eeeeeeee....hhhhhhhhhhhhhhhhhh.........eee.....eeee......hhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhh.......hhh.eeeee..eeee...hhhhhh..hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh.........hhhhhhhhhhh..........hhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhhhhhhhhh...........hhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4zse A  699 PNQALLRILKETEFKKIKVLGSGAFGTVYKGLWIPEGEKVKIPVAIKELREATSPKANKEILDEAYVMASVDNPHVCRLLGICLTSTVQLIMQLMPFGCLLDYVREHKDNIGSQYLLNWCVQIAKGMNYLEDRRLVHRDLAARNVLVKTPQHVKITDFGLAKLLKVPIKWMALESILHRIYTHQSDVWSYGVTVWELMTFGSKPYDGIPASEISSILEKGERLPQPPICTIDVYMIMRKCWMIDADSRPKFRELIIEFSKMARDPQRYLVIQGDERMHLPSPTDSNFYRALMDEEDM 1007
                                   708       718       728       738       748       758       768       778       788       798       808       818       828       838       848       858   ||  880       890       900       910       920       930       940       950       960       970       980       990      1000       
                                                                                                                                                                                             862|                                                                                                                                    
                                                                                                                                                                                              875                                                                                                                                    


Chain B from PDB  Type:PROTEIN  Length:313
                                                                                                                                                                                                                                                                                                                                                          
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhee.hhh.eeeeeeeee...eeeeeeee........eeeeeeee.......hhhhhhhhhhhhhh..........eeee...eeeee......hhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhh.......hhh.eeeee..eeee...hhhhhh..hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh.........hhhhhhhhhhh..........hhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhhhhhhhhh...hhhhh...hhhhhhhhhhhhh................... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4zse B  698 APNQALLRILKETEFKKIKVLGSGAFGTVYKGLWIPEGEKVKIPVAIKELREATSPKANKEILDEAYVMASVDNPHVCRLLGICLTSTVQLIMQLMPFGCLLDYVREHKDNIGSQYLLNWCVQIAKGMNYLEDRRLVHRDLAARNVLVKTPQHVKITDFGLAKLLKVPIKWMALESILHRIYTHQSDVWSYGVTVWELMTFGSKPYDGIPASEISSILEKGERLPQPPICTIDVYMIMRKCWMIDADSRPKFRELIIEFSKMARDPQRYLVIQGDERMHLPSPTDSNFYRALMDEEDMDDVVDADEYLIPQQG 1022
                                   707       717       727       737       747       757       767       777       787       797       807       817       827       837       847       857    || 879       889       899       909       919       929       939       949       959       969       979       989       999      1009      1019   
                                                                                                                                                                                              862|                                                                                                                                                   
                                                                                                                                                                                               875                                                                                                                                                   


Chain C from PDB  Type:PROTEIN  Length:301
                                                                                                                                                                                                                                                                                                                                              
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhee.hhh.eeeeeeeee...eeeeeeee........eeeeeeee....hhhhhhhhhhhhhhhhh..........eee.....eeee......hhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhh.......hhh.eeeee..eeee...hhhhhh.hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh.........hhhhhhhhhhh..........hhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhhhhhhhhh...........hhhhhhhhhhhhh.......... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4zse C  700 NQALLRILKETEFKKIKVLGSGAFGTVYKGLWIPEGEKVKIPVAIKELREATSPKANKEILDEAYVMASVDNPHVCRLLGICLTSTVQLIMQLMPFGCLLDYVREHKDNIGSQYLLNWCVQIAKGMNYLEDRRLVHRDLAARNVLVKTPQHVKITDFGLAKLLVPIKWMALESILHRIYTHQSDVWSYGVTVWELMTFGSKPYDGIPASEISSILEKGERLPQPPICTIDVYMIMRKCWMIDADSRPKFRELIIEFSKMARDPQRYLVIQGDERMHLPSPTDSNFYRALMDEEDMDDVVDA 1013
                                   709       719       729       739       749       759       769       779       789       799       809       819       829       839       849       859  ||   882       892       902       912       922       932       942       952       962       972       982       992      1002      1012 
                                                                                                                                                                                            862|                                                                                                                                         
                                                                                                                                                                                             876                                                                                                                                         


Chain D from PDB  Type:PROTEIN  Length:297
                                                                                                                                                                                                                                                                                                                                          
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....ee.hhh.eeeeeeeee...eeeeeeee........eeeeeeee.....hhhhhhhhhhhhhh..........eee.....eeee......hhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhh.......hhh.eeeee..eeee...hhhhhhh.hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh...........hhhhhhhhh..........hhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhhhhhhhhh...hhhhh...hhhhhhhhhhhhh........ Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4zse D  701 QALLRILKETEFKKIKVLGSGAFGTVYKGLWIPEGEKVKIPVAIKELRESPKANKEILDEAYVMASVDNPHVCRLLGICLTSTVQLIMQLMPFGCLLDYVREHKDNIGSQYLLNWCVQIAKGMNYLEDRRLVHRDLAARNVLVKTPQHVKITDFGLAKLLGVPIKWMALESILHRIYTHQSDVWSYGVTVWELMTFGSKPYDGIPASEISSILEKGERLPQPPICTIDVYMIMRKCWMIDADSRPKFRELIIEFSKMARDPQRYLVIQGDERMHLPSPTDSNFYRALMDEEVVDADE 1015
                                   710       720       730       740       752       762       772       782       792       802       812       822       832       842       852       862||     884       894       904       914       924       934       944       954       964       974       984       994      1004||     
                                                                          749|                                                                                                            863|                                                                                                                             1005|     
                                                                           752                                                                                                             876                                                                                                                              1010
   Legend:   → Mismatch (orange background)
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  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 4ZSE)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4ZSE)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4ZSE)

(-) Gene Ontology  (111, 111)

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  2.7.10.1
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(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        EGFR_HUMAN | P00533: 1dnq 1dnr 1ivo 1m14 1m17 1mox 1nql 1xkk 1yy9 1z9i 2eb2 2eb3 2exp 2exq 2gs2 2gs6 2gs7 2itn 2ito 2itp 2itq 2itt 2itu 2itv 2itw 2itx 2ity 2itz 2j5e 2j5f 2j6m 2jit 2jiu 2jiv 2ks1 2m0b 2m20 2n5s 2rf9 2rfd 2rfe 2rgp 3b2u 3b2v 3bel 3buo 3c09 3g5v 3g5y 3gop 3gt8 3ika 3lzb 3njp 3ob2 3op0 3p0y 3pfv 3poz 3qwq 3ug1 3ug2 3vjn 3vjo 3vrp 3vrr 3w2o 3w2p 3w2q 3w2r 3w2s 3w32 3w33 4g5j 4g5p 4hjo 4i1z 4i20 4i21 4i22 4i23 4i24 4jq7 4jq8 4jr3 4jrv 4krl 4krm 4kro 4krp 4li5 4ll0 4lqm 4lrm 4r3p 4r3r 4r5s 4riw 4rix 4riy 4rj4 4rj5 4rj6 4rj7 4rj8 4tks 4uip 4uv7 4wd5 4wkq 4wrg 4zau 4zjv 5c8k 5c8m 5c8n 5cal 5can 5cao 5cap 5caq 5cas 5cau 5cav 5cnn 5cno 5czh 5czi 5d41 5edp 5edq 5edr 5em5 5em6 5em7 5em8 5fed 5fee 5feq 5gmp 5gnk 5hcx 5hcy 5hcz 5hg5 5hg7 5hg8 5hg9 5hib 5hic 5j9y 5j9z 5jeb 5lv6 5sx4 5sx5 5u8l 5ug8 5ug9 5uga 5ugb 5ugc

(-) Related Entries Specified in the PDB File

4zqj CRYSTAL STRUCTURE OF EGFR 696-1022 T790M/V948R, CRYSTAL FORM I